I didn't install ubuntu I just used a live disk. I used Gparted to partition my 2nd hard drive. After that nothing would boot. Hard drives would not boot, USB drives would not boot. Disk drive was able to boot I ended up having to just re-do windows entirely, someone else had said my bootloader was messed up. I even flashed the Bios Again with no luck. I finally just made a windows install disk, formatted both drives, and am in the process of installing windows 7 again.
Still I have no idea why a partitioning program messed up my primary hard drive when I didn't do anything to it. So it is strange I was just running a live disk so nothing should have been written to the drives other than making a ext4 partition to my 2nd hard drive. I guess the so called Gparted that everyone says is so great isn't so great.
But yes it is now solved.